ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CTCGACTTCTACTTCTTCTCGGGCCCGACGCCGTTGGCCATAGTGGATCAGTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCGgtaaggactgccttgctcagactcagagtcgatttcagccttttgtgctgtcctttactcattgtcagattagaaggatatacatcaaatgcttaagtta...

Basic information

species	Zea mays
transcript	GRMZM2G009282_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G009282_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g03950.1 (Oryza sativa), 5'ss of exon 2

CTCGACTTCTACTTCTTCTCGGGCCCGACGCCGTTGGCCATAGTGGATCAGTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCGgtaaggactgccttgctcagactcagagtcgatttcagccttttgtgctgtcctttactcattgtcagattagaaggatatacatcaaatgcttaagtta--
||||| |||||| ||||||| || ||||||||||||||| | ||||||||||||||||| |||||||| || || || || ||||| ||||||||||| |||||  ||||||   ||     |         ||||| | ||||  | ||   | |  |  |  |   ||||      | |     |  |   | ||||   
CTCGATTTCTACCTCTTCTCCGGGCCGACGCCGTTGGCCGTGGTGGATCAGTACACGTCCATGATCGGACGACCAGCCCCAATGCCGTACTGGGCATTTGgtaactactgcccaacttcattttctttgttttttcatcatttttggatgagttctggt-gtcctttaattacgttt-tgtctggtagttttattagttttg

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

ATGC    EST sequence
ATGC    genomic sequence (exon)
ATGC    genomic sequence (truncated intron)

EST: gi|148973623|gb|EE024733.2|EE024733

EST:     GTATACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCG                         GGTTCCACCAATGTAGGTGGGGGTACAAGAACCTTTCAGTGGTAGAGGGCG
genomic: GTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCGgtaaggactg ... tgtctttcagGGTTCCACCAATGTAGGTGGGGGTACAAGAACCTTTCAGTGGTAGAGGGCG

EST: gi|149016438|gb|EE154237.2|EE154237

EST:     GTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCG                         GGTTCCACCAATGTAGGTGGGGGTACAAGAACCTTTCAGTGGTAGAGGGCG
genomic: GTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCGgtaaggactg ... tgtctttcagGGTTCCACCAATGTAGGTGGGGGTACAAGAACCTTTCAGTGGTAGAGGGCG

EST: gi|5555560|gb|AI881511.1|AI881511

EST:     GTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTATTGGGCATTCG                         GGTTCCACCAATGTAGGTGGGGGTACAAGAACCTTTCAGTGGTAGAGAGCG
genomic: GTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCGgtaaggactg ... tgtctttcagGGTTCCACCAATGTAGGTGGGGGTACAAGAACCTTTCAGTGGTAGAGGGCG

EST: gi|89252471|gb|DY624257.1|DY624257

EST:     GTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCG                         GGTTCCACCAATGTAGGTGGGGGTACAAGAACCTTTCAGTGGTAGAGGGCG
genomic: GTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCGgtaaggactg ... tgtctttcagGGTTCCACCAATGTAGGTGGGGGTACAAGAACCTTTCAGTGGTAGAGGGCG

EST: gi|148971102|gb|EE021947.2|EE021947

EST:     GTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCG                         GGTTCCACCAATGTAGGTGGGGGTACAAGAACCTTTCAGTGGTAGAGGGCG
genomic: GTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCGgtaaggactg ... tgtctttcagGGTTCCACCAATGTAGGTGGGGGTACAAGAACCTTTCAGTGGTAGAGGGCG

EST: gi|91874962|gb|EB404919.1|EB404919

EST:     GTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCG                         GGTTCCACCAATGTAGGTGGGGGTACAAGAACCTTTCAGTGGTAGAGGGCG
genomic: GTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCGgtaaggactg ... tgtctttcagGGTTCCACCAATGTAGGTGGGGGTACAAGAACCTTTCAGTGGTAGAGGGCG

EST: gi|50330692|gb|CO525818.1|CO525818

EST:     GTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCG                         GGTTCCACCAATGTAGGTGGGGGTACAAGAACCTTTCAGTGGTAGAGGGCG
genomic: GTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCGgtaaggactg ... tgtctttcagGGTTCCACCAATGTAGGTGGGGGTACAAGAACCTTTCAGTGGTAGAGGGCG

RNA-Seq data

ATGC Supported by RNA-Seq exonic block that spans over the splice site

atgs Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.

Found data for 4 RNA-Seq libraries.

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 393

CTCGACTTCTACTTCTTCTCGGGCCCGACGCCGTTGGCCATAGTGGATCAGTACACGTCGATGATCGGCCGTCCCGCGCCCATGCCTTACTGGGCATTCGgtaaggactg ... tgtctttcagGGTTCCACCAATGTAGGTGGGGGTACAAGAACCTTTCAGTGGTAGAGGGCGTTGTGGAAGGTTACCGTAATGCCCAGATACCGCTGGACGTGATCTGGAA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 74

Block sizes: 44 (upstream exon), 49 (downstream exon)
Score: 18